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<a href="./">OBITools V4</a>
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<a href="./index.html" class="sidebar-item-text sidebar-link">Preface</a>
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<a href="./intro.html" class="sidebar-item-text sidebar-link">The OBITools</a>
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<a href="./installation.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">1</span> <span class="chapter-title">Installation of the <em>OBITools</em></span></a>
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<a href="./formats.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">2</span> <span class="chapter-title">File formats usable with <em>OBITools</em></span></a>
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<a href="./tutorial.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">3</span> <span class="chapter-title">OBITools V4 Tutorial</span></a>
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<a href="./commands.html" class="sidebar-item-text sidebar-link">The *OBITools V4* commands</a>
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<a href="./inupt.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">4</span> <span class="chapter-title">Specifying the data input to <em>OBITools</em> commands</span></a>
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<a href="./output.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">5</span> <span class="chapter-title">Controling OBITools outputs</span></a>
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<a href="./common_options.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">6</span> <span class="chapter-title">Options common to most of the <em>OBITools</em> commands</span></a>
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<a href="./expressions.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">7</span> <span class="chapter-title">OBITools expression language</span></a>
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<a href="./comm_metabarcode_design.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">8</span> <span class="chapter-title">Metabarcode design and quality assessment</span></a>
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<a href="./comm_reformat.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">9</span> <span class="chapter-title">File format conversions</span></a>
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<a href="./comm_annotation.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">10</span> <span class="chapter-title">Sequence annotations</span></a>
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<a href="./comm_computation.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">11</span> <span class="chapter-title">Computations on sequences</span></a>
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<a href="./comm_sampling.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">12</span> <span class="chapter-title">Sequence sampling and filtering</span></a>
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<a href="./comm_utilities.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">13</span> <span class="chapter-title">Utilities</span></a>
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<span class="sidebar-item-text sidebar-link text-start">The GO *OBITools* library</span>
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<a href="./annexes.html" class="sidebar-item-text sidebar-link"><span class="chapter-number">A</span> <span class="chapter-title">Annexes</span></a>
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<h1 class="title d-none d-lg-block">References</h1>
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<div id="ref-Andersen2012-gj" class="csl-entry" role="doc-biblioentry">
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Andersen, Kenneth, Karen Lise Bird, Morten Rasmussen, James Haile,
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Henrik Breuning-Madsen, Kurt H Kjaer, Ludovic Orlando, M Thomas P
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Gilbert, and Eske Willerslev. 2012. <span>“<span class="nocase">Meta-barcoding of <span class="nocase">ë</span>dirt<span class="nocase">ı́</span>DNA from soil reflects vertebrate
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biodiversity</span>.”</span> <em>Molecular Ecology</em> 21 (8): 1966–79.
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</div>
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<div id="ref-Baldwin2013-yc" class="csl-entry" role="doc-biblioentry">
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Baldwin, Darren S, Matthew J Colloff, Gavin N Rees, Anthony A Chariton,
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Garth O Watson, Leon N Court, Diana M Hartley, et al. 2013. <span>“<span class="nocase">Impacts of inundation and drought on eukaryote
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biodiversity in semi-arid floodplain soils</span>.”</span> <em>Molecular
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Ecology</em> 22 (6): 1746–58. <a href="https://doi.org/10.1111/mec.12190">https://doi.org/10.1111/mec.12190</a>.
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</div>
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<div id="ref-Boyer2016-gq" class="csl-entry" role="doc-biblioentry">
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Boyer, Frédéric, Céline Mercier, Aurélie Bonin, Yvan Le Bras, Pierre
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Taberlet, and Eric Coissac. 2016. <span>“<span class="nocase">obitools:
|
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a unix-inspired software package for DNA metabarcoding</span>.”</span>
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<em>Molecular Ecology Resources</em> 16 (1): 176–82. <a href="https://doi.org/10.1111/1755-0998.12428">https://doi.org/10.1111/1755-0998.12428</a>.
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</div>
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<div id="ref-Caporaso2010-ii" class="csl-entry" role="doc-biblioentry">
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Caporaso, J Gregory, Justin Kuczynski, Jesse Stombaugh, Kyle Bittinger,
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Frederic D Bushman, Elizabeth K Costello, Noah Fierer, et al. 2010.
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<span>“<span class="nocase">QIIME allows analysis of high-throughput
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community sequencing data</span>.”</span> <em>Nature Methods</em> 7 (5):
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335–36. <a href="https://doi.org/10.1038/nmeth.f.303">https://doi.org/10.1038/nmeth.f.303</a>.
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</div>
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<div id="ref-Chariton2010-cz" class="csl-entry" role="doc-biblioentry">
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Chariton, Anthony A, Anthony C Roach, Stuart L Simpson, and Graeme E
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Batley. 2010. <span>“<span class="nocase">Influence of the choice of
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physical and chemistry variables on interpreting patterns of sediment
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